The GASSCO method for correcting for slide-dependent gene-specific dye bias


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Documentation for package ‘dyebias’ version 1.62.0

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dyebias-package The GASSCO method for correcting for slide-dependent gene-specific dye bias
dyebias The GASSCO method for correcting for slide-dependent gene-specific dye bias
dyebias.application.subset Return a subset of reporters that can be dye bias-corrected reasonably well
dyebias.apply.correction Perform dye bias correction using the GASSCO method
dyebias.boxplot Creates boxplots of the reporters with the strongest dye bias
dyebias.estimate.iGSDBs Estimate intrinsic gene specific dye biases (part of the GASSCO method)
dyebias.maplot Produce scatterplots of the hybridization, with strongest dye biases highlighted.
dyebias.monotonicity Calculate the degree of monotonicity of the dye bias across the slides. DEPRACATED
dyebias.monotonicityplot Show the degree of monotonicity of the dye bias across the slides. DEPRACATED
dyebias.rgplot Produce scatterplots of the hybridization, with strongest dye biases highlighted.
dyebias.trendplot Creates a trend-plot of all reporters, binned by dye bias, with all slides ordered by slide bias.